phylogenetic placement of query sequences in a reference tree
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’ ]
queryaln{:bash}
:file
aligned query sequences in any supported format including phylip and fasta, may be gzipped
*
referencealn{:bash}
reference alignment in any supported format including phylip and fasta, may be gzipped
referencetree{:bash}
newick file containing the reference tree in which query sequences will be placed
bfastfile{:bash}
file argument to the —bfast parameter
binaryfile{:bash}
file argument to the —binary parameter
epang{:bash}
./.{:bash}
:directory
directory in which EPA-NG was run
jplace{:bash}
*.epa_result.jplace.gz{:bash}
gzipped file with placement information
*.jplace.gz
log{:bash}
*.epa_info.log{:bash}
log file from placement
*.log
versions_epang{:bash}
${task.process}{:bash}
:string
The name of the process
epa-ng{:bash}
The name of the tool
epa-ng --version | sed "s/EPA-ng v//"{:bash}
:eval
The expression to obtain the version of the tool
versions{:bash}
Massively parallel phylogenetic placement of genetic sequences
